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Forensic DNA

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https://www.readbyqxmd.com/read/27914554/comparative-performance-of-ampflstr%C3%A2-identifiler%C3%A2-plus-pcr-amplification-kit-and-qiagen%C3%A2-investigator%C3%A2-idplex-plus-kit
#1
Dalad Mattayat, Thitika Kitpipit, Sukanya Phetpeng, Watee Asawutmangkul, Phuvadol Thanakiatkrai
Many forensic STR kits are currently available in the market. The AmpFLSTR® Identifiler® Plus kit, which targets 15 STRs, is commonly used worldwide. The Thai forensic DNA community is built around it in terms of instrument, databases, and interpretation. QIAGEN's IDplex Plus kit targets the same loci, but the PCR cycling time is shorter by about 90min. A direct comparison that assesses forensic parameters and applicability to casework between the two kits has never been carried out. In this study, we performed a direct comparison between the two kits using serial dilutions of two control DNA samples and 60 randomly selected casework samples, including samples taken from improvised explosive devices and terrorist raids...
December 2016: Science & Justice: Journal of the Forensic Science Society
https://www.readbyqxmd.com/read/27909867/developmental-validation-of-the-homygene19-14y-system
#2
Weian Du, Ling Chen, Hong Liu, Pingming Qiu, Fayuan Li, Jing Gao, Yu Zhou, Bangchao Wang, Chao Liu
The HomyGene19+14Y System (HG19+14Y) is a PCR-based amplification kit that enables typing of 18 autosomal short tandem repeat (STR) loci (i.e., CSF1PO, D2S1338, D3S1358, D5S818, D6S1043, D7S820, D8S1179, D12S391, D13S317, D16S539, D18S51, D19S433, D21S11, FGA, Penta E, TPOX, TH01, vWA), 14 widely used Y chromosome STR (Y-STR) loci (Y_GATA_H4, DYS385a/b, DYS389I/II, DYS390, DYS391, DYS392, DYS393, DYS438, DYS439, DYS456, DYS458, DYS635), and amelogenin. This multiplex system was designed for the simultaneous analysis of amelogenin-Y allele mutation, single-source searches, kinship (including familial searching), mixture profiles, international data sharing, and other forensic applications...
December 1, 2016: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/27908595/polymerase-chain-reaction-with-nearby-primers
#3
Ravil R Garafutdinov, Aizilya A Galimova, Assol R Sakhabutdinova
DNA analysis of biological specimens containing degraded nucleic acids such as mortal remains, archaeological artefacts, forensic samples etc. has gained more attention in recent years. DNA extracted from these samples is often inapplicable for conventional polymerase chain reaction (PCR), so for its amplification the nearby primers are commonly used. Here we report the data that clarify the features of PCR with nearby and abutting primers. We have shown that the proximity of primers leads to significant reduction of the reaction time and ensures the successful performance of DNA amplification even in the presence of PCR inhibitors...
November 28, 2016: Analytical Biochemistry
https://www.readbyqxmd.com/read/27907810/prediction-of-autosomal-str-typing-success-in-ancient-and-second-world-war-bone-samples
#4
Irena Zupanič Pajnič, Tomaž Zupanc, Jože Balažic, Živa Miriam Geršak, Oliver Stojković, Ivan Skadrić, Matija Črešnar
Human-specific quantitative PCR (qPCR) has been developed for forensic use in the last 10 years and is the preferred DNA quantification technique since it is very accurate, sensitive, objective, time-effective and automatable. The amount of information that can be gleaned from a single quantification reaction using commercially available quantification kits has increased from the quantity of nuclear DNA to the amount of male DNA, presence of inhibitors and, most recently, to the degree of DNA degradation. In skeletal remains samples from disaster victims, missing persons and war conflict victims, the DNA is usually degraded...
November 19, 2016: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/27907243/an-optimized-centrifugal-method-for-separation-of-semen-from-superabsorbent-polymers-for-forensic-analysis
#5
Lucy R Camarena, Bailey K Glasscock, Demi Daniels, Nicolle Ackley, Marybeth Sciarretta, Sarah J Seashols-Williams
Connection of a perpetrator to a sexual assault is best performed through the confirmed presence of semen, thereby proving sexual contact. Evidentiary items can include sanitary napkins or diapers containing superabsorbent polymers (SAPs), complicating spermatozoa visualization and DNA analysis. In this report, we evaluated the impact of SAPS on the current forensic DNA workflow, developing an efficient centrifugal protocol for separating spermatozoa from SAP material. The optimized filtration method was compared to common practices of excising the top layer only, resulting in significantly higher sperm yields when a core sample of the substrate was taken...
December 1, 2016: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/27907229/inferring-the-number-of-contributors-to-complex-dna-mixtures-using-three-methods-exploring-the-limits-of-low-template-dna-interpretation
#6
Lauren E Alfonse, Genesis Tejada, Harish Swaminathan, Desmond S Lun, Catherine M Grgicak
In forensic DNA casework, the interpretation of an evidentiary profile may be dependent upon the assumption on the number of individuals from whom the evidence arose. Three methods of inferring the number of contributors-NOCIt, maximum likelihood estimator, and maximum allele count, were evaluated using 100 test samples consisting of one to five contributors and 0.5-0.016 ng template DNA amplified with Identifiler(®) Plus and PowerPlex(®) 16 HS. Results indicate that NOCIt was the most accurate method of the three, requiring 0...
December 1, 2016: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/27907225/informativeness-of-ngs-analysis-for-vaginal-fluid-identification
#7
Saverio Giampaoli, Elisabetta DeVittori, Federica Valeriani, Andrea Berti, Vincenzo Romano Spica
The identification of vaginal fluids in forensic examinations plays an important role in crime scene reconstruction. Molecular detection of vaginal bacterial communities can lead to the correct discrimination of body fluids. These kinds of studies can be performed through multiplex real-time PCR using primers for a specific selection of bacteria. The availability of next-generation sequencing (NGS) protocols provided for the extension of the analysis to evaluate the prokaryotes present in specimens. In this study, DNA was extracted from 18 samples (vaginal, oral, fecal, yoghurt) and analyzed by real-time PCR and NGS...
December 1, 2016: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/27906971/nullomers-and-high-order-nullomers-in-genomic-sequences
#8
Davide Vergni, Daniele Santoni
A nullomer is an oligomer that does not occur as a subsequence in a given DNA sequence, i.e. it is an absent word of that sequence. The importance of nullomers in several applications, from drug discovery to forensic practice, is now debated in the literature. Here, we investigated the nature of nullomers, whether their absence in genomes has just a statistical explanation or it is a peculiar feature of genomic sequences. We introduced an extension of the notion of nullomer, namely high order nullomers, which are nullomers whose mutated sequences are still nullomers...
2016: PloS One
https://www.readbyqxmd.com/read/27902658/understanding-negative-predictive-value-of-diagnostic-tests-used-in-clinical-practice
#9
Reba A Umberger, Linda A Hatfield, Patricia M Speck
Nurses review, evaluate, and use diagnostic test results on a routine basis. However, the skills necessary to evaluate a particular test using statistical outcome measures is often lacking. The purpose of this article is to examine and interpret the underlying principles for use of the statistical outcomes of diagnostic screening tests (sensitivity, specificity, and positive (PPV) and negative (NPV) predictive values, with a discussion about use of SpPIn [Specificity, Positive test = rule in], and SnNOut [Sensitivity, Negative test = rule out]) in advanced nursing clinical practice...
January 2017: Dimensions of Critical Care Nursing: DCCN
https://www.readbyqxmd.com/read/27900264/a-genomic-study-on-distribution-of-human-leukocyte-antigen-hla-a-and-hla-b-alleles-in-lak-population-of-iran
#10
Farhad Shahsavar, Ali-Mohammad Varzi, Seyyed Amir Yasin Ahmadi
Anthropological studies based on the highly polymorphic gene, human leukocyte antigen (HLA), provide useful information for bone marrow donor registry, forensic medicine, disease association studies, as well as infertility treatment, designing peptide vaccines against tumors, and infectious or autoimmune diseases. The aim of this study was to determine HLA-A and HLA-B allele frequencies in 100 unrelated Lak/lᴂk/individuals from Lorestan province of Iran. Finally, we compared the results with that previously described in Iranian population...
March 2017: Genomics Data
https://www.readbyqxmd.com/read/27890109/ascorbic-acid-and-vitamin-c-containing-beverages-delay-the-leucomalachite-green-reaction-to-detect-latent-bloodstains
#11
Haeyong Lee, Myung Jin Park, Seol Hee Sun, Dong-Ho Choi, Yang-Han Lee, Ki-Won Park, Byung Won Chun
The leucomalachite green (LMG) test is one of catalytic tests for the detection of latent bloodstains and generally used in forensic field because of convenience and cost/time-effectiveness. However, contamination of latent bloodstains at crime scenes can interfere with the LMG reaction, resulting in false-negative or false-positive decisions. Herein, we examined if ascorbic acid and vitamin C (l-ascorbic acid or ascorbate)-containing beverages affect the LMG reaction. Ascorbic acid showed the inhibitory activities on the LMG reaction in a dose-dependent manner...
November 2016: Legal Medicine
https://www.readbyqxmd.com/read/27890103/the-genetic-structure-of-native-americans-in-north-america-based-on-the-globalfiler%C3%A2-strs
#12
Kelly L McCulloh, Jillian Ng, Robert F Oldt, Jessica A Weise, Joy Viray, Bruce Budowle, David Glenn Smith, Sreetharan Kanthaswamy
Current forensic STR databases, such as CODIS, lack population genetic data on Native American populations. Information from a geographically diverse array of tribes is necessary to provide improved statistical estimates of the strength of associations with DNA evidence. The Globalfiler® STR markers were used to characterize the genetic structure of ten tribal populations from seven geographic regions in North America, including those not presently represented in forensic databases. Samples from the Arctic region, Baja California, California/Great Basin, the Southeast, Mexico, the Midwest, and the Southwest were analyzed for allele frequencies, observed and expected heterozygosities, and F-statistics...
November 2016: Legal Medicine
https://www.readbyqxmd.com/read/27890097/forensic-genetic-study-of-29-y-strs-in-korean-population
#13
Ju Yeon Jung, Ji-Hye Park, Yu-Li Oh, Han-Sol Kwon, Hyun-Chul Park, Kyung-Hwa Park, Eun Hye Kim, Dong-Sub Lee, Si-Keun Lim
In this study, we compared two recently released commercial Y-chromosomal short tandem repeat (Y-STR) kits: the PowerPlex Y23 System (PPY23) and Yfiler® Plus PCR amplification kit (YPlus). We performed validation studies, including sensitivity, tolerance to PCR inhibitors, and mixture analysis, and a population genetics study using 306 unrelated South Korean males. PPY23 and YPlus showed similar sensitivity, but PPY23 showed higher tolerance to humic acid than YPlus. Furthermore, the detection rate of unique minor alleles called from male/male mixtures was higher for PPY23 than for YPlus...
November 2016: Legal Medicine
https://www.readbyqxmd.com/read/27885653/comparing-standard-and-selective-degradation-dna-extraction-methods-results-from-a-field-experiment-with-sexual-assault-kits
#14
Rebecca Campbell, Steven J Pierce, Dhruv B Sharma, Jessica Shaw, Hannah Feeney, Jeffrey Nye, Kristin Schelling, Giannina Fehler-Cabral
: A growing number of U.S. cities have large numbers of untested sexual assault kits (SAKs) in police property facilities. Testing older kits and maintaining current case work will be challenging for forensic laboratories, creating a need for more efficient testing methods. METHODS: We evaluated selective degradation methods for DNA extraction using actual case work from a sample of previously unsubmitted SAKs in Detroit, Michigan. We randomly assigned 350 kits to either standard or selective degradation testing methods and then compared DNA testing rates and CODIS entry rates between the two groups...
November 25, 2016: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/27874186/lessons-learned-from-autopsying-an-unidentified-body-with-iodine-125-seeds-implanted-for-prostate-brachytherapy
#15
Nozomi Idota, Mami Nakamura, Koji Masui, Yasuhiro Kakiuchi, Kei Yamada, Hiroshi Ikegaya
We report here lessons learned from an autopsy case involving radioactive materials. We performed an autopsy of an unidentified mummified man with no available medical history whom from imaging findings we suspected had received radioactive seed implants for prostate brachytherapy. We returned the excised prostate and seeds to the body. A few days later, the body was identified by DNA matching and cremated. According to the man's medical record, he had undergone iodine-125 seeds implantation for prostate cancer 11 months earlier...
November 22, 2016: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/27864949/multimethod-resolution-of-a-small-scale-case-of-commingling
#16
Janet E Finlayson, Eric J Bartelink, Alexandra Perrone, Kevin Dalton
This study highlights the use of multiple methods for resolving a case of commingled human remains. Skeletal remains were located in a marijuana field in rural northern California by law enforcement. Although initially buried in shallow graves, the remains of two decedents were disturbed by large carnivores and scattered over a wide area. The remains were submitted by law enforcement for forensic anthropological analysis and resolution of commingling. To segregate the remains of the two individuals, a number of methods were employed, including: (i) physical matching of fragmented remains; (ii) articulation to evaluate joint congruence; (iii) visual pair-matching of bilateral elements; (iv) osteometric pair-matching; (v) evaluation of taphonomic patterns; (vi) DNA analysis; and (vii) portable X-ray spectrometry (pXRF)...
November 16, 2016: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/27864934/recovery-of-trace-dna-on-clothing-a-comparison-of-mini-tape-lifting-and-three-other-forensic-evidence-collection-techniques
#17
Sabine Hess, Cordula Haas
Trace DNA is often found in forensic science investigations. Experience has shown that it is difficult to retrieve a DNA profile when trace DNA is collected from clothing. The aim of this study was to compare four different DNA collection techniques on six different types of clothing in order to determine the best trace DNA recovery method. The classical stain recovery technique using a wet cotton swab was tested against dry swabbing, scraping and a new method, referred to as the mini-tape lifting technique...
November 16, 2016: Journal of Forensic Sciences
https://www.readbyqxmd.com/read/27859215/tracing-males-from-different-continents-by-genotyping-jc-polyomavirus-in-dna-from-semen-samples
#18
John Charles Rotondo, Tommaso Candian, Rita Selvatici, Elisa Mazzoni, Gloria Bonaccorsi, Pantaleo Greco, Mauro Tognon, Fernanda Martini
The human JC polyomavirus (JCPyV) is an ubiquitous viral agent infecting approximately 60% of humans. Recently, JCPyV sequences have been detected in semen samples. The aim of this investigation was to test whether semen JCPyV genotyping can be employed to trace the origin continent of males. Semen DNA samples (n = 170) from males of different Continents were investigated by PCR for the polymorphic JCPyV viral capsid protein 1 (VP1) sequences, followed by DNA sequencing. JCPyV sequences were detected with an overall prevalence of 27...
November 11, 2016: Journal of Cellular Physiology
https://www.readbyqxmd.com/read/27857155/fluorescence-and-magnetic-activated-cell-sorting-strategies-to-separate-spermatozoa-involving-plural-contributors-from-biological-mixtures-for-human-identification
#19
Yan Xu, Jianhui Xie, Ronghua Chen, Yu Cao, Yuan Ping, Qingwen Xu, Wei Hu, Dan Wu, Lihua Gu, Huaigu Zhou, Xin Chen, Ziqin Zhao, Jiang Zhong, Rui Li
No effective method has been developed to distinguish sperm cells originating from different men in multi-suspect sexual assault cases. Here we combined MACS and FACS to isolate single donor sperm cells from forensic mixture samples including female vaginal epithelial cells and sperm cells from multiple contributors. Sperms from vaginal swab were isolated by MACS using FITC-conjugated A kinase anchor protein 3 (AKAP3) antibody; target individual sperm cells involving two or three donors were separated by FACS using FITC-labeled blood group A/B antigen antibody...
November 18, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27833335/the-role-of-dentistry-in-disaster-management-and-victim-identification-an-overview-of-challenges-in-indo-nepal-scenario
#20
REVIEW
Shubha Ranjan Dutta, Purnima Singh, Deepak Passi, Don Varghese, Sarang Sharma
BACKGROUND: Recently, natural disasters and terrorist activities have been leading to mass casualty situations unexpectedly around the globe. In addition to the traditional emergency medical services centering around medically trained and paramedic personnel, dental practitioners having vital skills and attributes may be important in responding to a mass casualty situation. OBJECTIVE: This paper aims at discussing the role of dentists in disaster management and the role of forensic odontology in the disaster victim identification (DVI), its status in India and some suggestions to develop the plans for same...
December 2016: Journal of Maxillofacial and Oral Surgery
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